genome.fa.s47.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold47
Parameters: 2 7 7 80 10 50 1000
Length:  2157611

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  5  of  15  ( 1735 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500710--500760	13	4.2	12	82	10	59	25	1	3	68	1.17
500718--500763	18	2.5	19	75	10	51	21	0	4	73	1.00
501673--501713	17	2.5	17	84	7	59	43	0	0	56	0.99
502345--502385	2	20.5	2	100	0	82	48	0	0	51	1.00
502746--503126	95	4.0	95	96	0	672	42	9	12	35	1.75
503640--503682	22	2.0	22	90	0	68	44	4	6	44	1.52
504278--504359	25	3.2	25	70	20	62	50	0	0	50	1.00
508982--509070	45	2.0	45	93	0	151	38	7	20	33	1.81
509078--509130	7	7.3	7	81	8	52	77	1	20	0	0.87
509082--509133	8	7.0	7	78	20	52	78	1	19	0	0.84
509082--509143	24	2.7	23	82	7	63	75	1	20	1	0.97
509846--509987	58	2.4	58	85	6	173	30	9	10	50	1.68
509877--510119	131	1.9	129	80	8	287	27	9	11	50	1.71
510054--510277	58	3.8	58	79	5	202	33	10	10	46	1.72
515271--515311	21	2.0	21	100	0	82	53	24	14	7	1.66
517400--517493	47	2.0	46	82	10	111	48	1	1	48	1.15
517673--517717	23	2.0	24	82	8	58	15	2	8	73	1.18
517958--518065	53	2.0	53	87	0	153	30	15	6	47	1.71
518143--518172	2	15.0	2	100	0	60	50	0	0	50	1.00
522591--522656	22	3.1	23	77	12	61	39	0	0	60	0.97
522606--522660	28	2.0	28	82	3	67	38	0	0	61	0.96
523246--523284	19	2.1	19	85	9	53	43	0	2	53	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523921--523976	23	2.4	23	88	5	87	42	14	14	28	1.84
527270--527313	21	2.1	21	100	0	88	34	18	13	34	1.90
528022--528091	35	1.9	37	86	13	101	47	1	0	51	1.09
528219--528243	2	12.5	2	100	0	50	48	0	0	52	1.00
529290--529334	19	2.4	18	81	3	54	46	0	0	53	1.00
530703--530834	64	2.0	65	91	4	214	43	4	11	40	1.61
532502--532535	2	17.0	2	93	0	59	47	0	2	50	1.16
534310--534349	21	1.9	21	100	0	80	32	10	17	40	1.83
534413--534480	19	3.9	19	78	21	85	35	11	14	38	1.83
534434--534458	13	1.9	13	100	0	50	36	16	16	32	1.90
534415--534477	32	2.0	32	96	0	117	34	12	15	36	1.86
534520--534545	13	2.0	13	100	0	52	30	15	15	38	1.88
534500--534566	33	2.0	33	88	0	98	25	14	16	43	1.86
537027--537099	27	2.6	28	86	2	94	24	32	21	20	1.97
537082--537256	52	3.3	52	83	3	226	29	27	12	31	1.92
536909--537362	212	2.1	211	88	2	687	28	27	13	30	1.94
537245--537311	28	2.4	27	85	7	82	23	37	17	20	1.94
537265--537468	78	2.6	79	82	3	234	24	29	17	28	1.97
538605--538793	99	1.9	97	81	4	227	32	11	17	38	1.86
539503--539614	20	6.3	20	69	24	81	38	8	14	39	1.75
539547--539616	33	2.1	33	97	0	131	37	11	14	37	1.82
539569--539594	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539530--539614	20	4.6	20	77	19	94	38	8	14	38	1.76
539503--539614	53	2.1	53	89	0	179	38	8	14	39	1.75
539695--539748	21	2.7	20	77	8	56	40	11	11	37	1.76
540178--540302	34	3.6	34	89	3	171	35	9	24	30	1.88
540175--540302	68	1.9	69	87	8	190	34	10	24	31	1.88
542996--543103	48	2.2	49	85	4	139	34	15	14	35	1.89
543092--543117	13	2.0	13	100	0	52	38	15	15	30	1.88
544406--544455	20	2.5	20	86	0	64	32	12	18	38	1.87
544503--544530	13	2.2	13	100	0	56	32	14	14	39	1.86
544516--544571	20	2.8	20	78	8	60	39	10	12	37	1.78
544990--545083	34	2.7	35	86	3	136	36	11	22	29	1.90
549947--550064	58	2.0	58	83	1	146	33	13	26	26	1.93
550129--550371	32	7.4	31	74	14	141	23	16	29	31	1.96
550115--550371	66	3.9	65	85	4	338	24	16	28	30	1.97
551861--551896	9	3.9	9	88	3	54	16	0	0	83	0.65
556509--556577	28	2.5	28	95	0	111	26	20	27	26	1.99
556448--556656	107	2.0	107	94	1	366	31	15	27	25	1.96
556533--556787	79	3.2	79	80	1	303	31	14	26	26	1.95
556723--556838	51	2.3	51	86	3	153	29	13	27	29	1.94
556668--556917	130	1.9	130	89	0	383	30	14	27	28	1.95
556774--557071	79	3.8	78	86	5	390	30	14	27	27	1.95
557007--557169	51	3.2	50	80	5	175	33	9	26	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556533--557122	284	2.1	287	87	2	830	31	14	26	27	1.94
559472--559525	20	2.7	20	85	5	74	42	14	14	27	1.85
559731--559769	21	1.9	20	89	5	60	35	10	15	38	1.81
560339--560443	42	2.6	41	77	6	115	40	9	27	21	1.84
560585--560813	61	3.8	60	81	6	275	27	20	27	24	1.99
560584--560833	122	2.1	118	86	6	337	26	22	27	24	2.00
560856--561088	61	3.9	60	88	3	317	27	19	27	26	1.99
562069--562137	19	3.6	18	84	13	84	1	1	13	84	0.77
562071--562135	8	7.9	8	77	16	62	1	1	12	84	0.76
562059--562136	18	3.8	21	80	14	74	1	3	10	84	0.80
562057--562135	30	2.6	30	84	8	79	1	3	10	84	0.80
562069--562136	11	6.4	11	78	13	63	1	1	11	85	0.74
562057--562115	1	59.0	1	75	0	55	0	5	6	88	0.64
566887--566958	28	2.6	28	88	0	99	23	19	34	22	1.96
566947--567283	52	6.4	52	67	17	167	31	13	25	29	1.94
567103--567171	27	2.5	27	88	6	95	23	21	30	24	1.99
566886--567285	212	1.9	212	89	3	617	30	14	27	28	1.95
567162--567280	51	2.3	53	84	7	145	32	11	22	32	1.90
569649--569674	13	2.0	13	100	0	52	38	15	15	30	1.88
569628--569694	33	2.0	33	88	0	98	43	16	14	25	1.86
569714--569781	19	3.9	18	76	23	83	38	14	11	35	1.83
569736--569760	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569717--569779	32	2.0	32	96	0	117	36	15	12	34	1.86
569817--569892	21	3.7	20	91	3	107	35	15	13	35	1.87
580210--580338	52	2.5	52	93	0	222	29	17	17	35	1.93
580347--580371	13	1.9	13	100	0	50	36	16	16	32	1.90
580424--580506	19	4.7	19	77	17	97	39	18	10	31	1.85
580419--580486	32	2.1	32	94	0	118	38	17	10	33	1.84
580932--581084	75	2.0	76	87	1	218	37	13	22	26	1.92
581072--581230	51	3.1	50	83	7	187	33	10	26	29	1.89
583541--583596	20	2.8	20	89	7	87	42	16	16	25	1.87
583530--583559	13	2.3	13	100	0	60	40	13	16	30	1.87
594425--594480	22	2.6	22	86	5	80	44	8	14	32	1.76
594425--594478	20	2.6	20	88	5	72	44	9	14	31	1.77
594526--594576	20	2.5	21	93	6	95	23	13	19	43	1.87
598523--598585	2	31.5	2	96	0	117	49	0	1	49	1.10
609789--609865	29	2.5	30	79	6	75	51	0	0	48	1.00
609815--609853	18	2.1	19	90	4	62	48	0	0	51	1.00
610635--610682	16	3.0	16	71	0	51	56	0	8	35	1.30
610642--610700	17	3.6	16	77	6	55	55	1	5	37	1.32
612921--612967	21	2.4	21	86	10	64	48	10	17	23	1.77
612841--613007	88	1.9	89	97	1	318	43	14	19	22	1.87
613537--613597	29	2.1	30	96	3	115	34	9	19	36	1.85
613547--613598	17	3.4	17	70	25	60	32	9	23	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614992--615039	26	1.9	25	87	8	71	50	4	2	43	1.33
615118--615158	21	2.0	21	85	9	57	31	2	2	63	1.20
615462--615571	38	2.9	37	80	2	112	33	13	23	29	1.93
619204--619331	52	2.5	52	94	3	224	30	17	17	33	1.94
619340--619364	13	1.9	13	100	0	50	36	16	16	32	1.90
619405--619471	33	2.0	33	82	5	82	40	13	11	34	1.81
619427--619451	13	1.9	13	100	0	50	32	16	16	36	1.90
623736--623882	38	3.9	38	81	6	154	31	10	26	31	1.91
623725--623897	38	4.6	38	78	5	152	28	10	28	31	1.90
626525--626575	12	4.4	11	78	16	50	68	0	1	29	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15